NanoComp report

Summary statistics

feature
General summary WT_C_R1 WT_C_R2 WT_C_R3 WT_AA_R1 WT_AA_R2 WT_AA_R3 anac017_1_C_R1 anac017_1_C_R2 anac017_1_C_R3 anac017_1_AA_R1
Mean read length 1,012.3 959.6 1,010.5 1,032.1 960.9 900.4 1,046.1 997.7 957.8 1,047.1
Mean read quality 9.3 9.2 9.2 9.4 8.9 8.9 9.0 8.9 8.8 8.9
Median read length 887.0 844.0 887.0 947.0 833.0 791.0 919.0 876.0 860.0 920.0
Median read quality 9.5 9.3 9.3 9.6 9.0 9.0 9.1 9.0 8.9 9.0
Number of reads 1,258,927.0 1,511,111.0 1,183,990.0 1,281,147.0 1,332,072.0 1,515,132.0 1,651,309.0 1,108,328.0 357,862.0 1,404,090.0
Read length N50 1,162.0 1,076.0 1,155.0 1,293.0 1,068.0 1,004.0 1,252.0 1,156.0 1,083.0 1,235.0
STDEV read length 559.0 521.0 552.5 511.0 543.2 471.6 581.1 554.3 488.4 579.2
Total bases 1,274,439,587.0 1,449,990,920.0 1,196,394,780.0 1,322,300,002.0 1,280,001,710.0 1,364,255,477.0 1,727,372,885.0 1,105,795,587.0 342,767,408.0 1,470,164,056.0
Number, percentage and megabases of reads above quality cutoffs
>Q10 369480 (29.3%) 397.7Mb 356380 (23.6%) 363.0Mb 271380 (22.9%) 290.1Mb 418007 (32.6%) 468.5Mb 177513 (13.3%) 174.4Mb 222383 (14.7%) 206.0Mb 277043 (16.8%) 306.3Mb 132425 (11.9%) 136.5Mb 41332 (11.5%) 41.7Mb 172402 (12.3%) 187.0Mb
>Q15 0 (0.0%) 0.0Mb 0 (0.0%) 0.0Mb 0 (0.0%) 0.0Mb 0 (0.0%) 0.0Mb 0 (0.0%) 0.0Mb 0 (0.0%) 0.0Mb 0 (0.0%) 0.0Mb 0 (0.0%) 0.0Mb 0 (0.0%) 0.0Mb 0 (0.0%) 0.0Mb
>Q20 0 (0.0%) 0.0Mb 0 (0.0%) 0.0Mb 0 (0.0%) 0.0Mb 0 (0.0%) 0.0Mb 0 (0.0%) 0.0Mb 0 (0.0%) 0.0Mb 0 (0.0%) 0.0Mb 0 (0.0%) 0.0Mb 0 (0.0%) 0.0Mb 0 (0.0%) 0.0Mb
>Q25 0 (0.0%) 0.0Mb 0 (0.0%) 0.0Mb 0 (0.0%) 0.0Mb 0 (0.0%) 0.0Mb 0 (0.0%) 0.0Mb 0 (0.0%) 0.0Mb 0 (0.0%) 0.0Mb 0 (0.0%) 0.0Mb 0 (0.0%) 0.0Mb 0 (0.0%) 0.0Mb
>Q30 0 (0.0%) 0.0Mb 0 (0.0%) 0.0Mb 0 (0.0%) 0.0Mb 0 (0.0%) 0.0Mb 0 (0.0%) 0.0Mb 0 (0.0%) 0.0Mb 0 (0.0%) 0.0Mb 0 (0.0%) 0.0Mb 0 (0.0%) 0.0Mb 0 (0.0%) 0.0Mb
Top 5 highest mean basecall quality scores and their read lengths
1 14.5 (209) 14.2 (202) 14.1 (263) 14.0 (400) 13.5 (384) 13.7 (270) 13.8 (201) 13.7 (204) 13.6 (200) 14.8 (241)
2 14.3 (238) 14.0 (208) 14.0 (258) 13.7 (222) 13.4 (389) 13.7 (630) 13.7 (210) 13.3 (201) 13.4 (264) 13.4 (253)
3 14.1 (216) 13.9 (240) 13.5 (402) 13.7 (890) 13.4 (399) 13.4 (269) 13.6 (419) 13.2 (395) 13.1 (239) 13.4 (206)
4 14.0 (266) 13.9 (235) 13.5 (345) 13.6 (1363) 13.2 (582) 13.4 (239) 13.5 (350) 13.1 (231) 13.1 (379) 13.4 (245)
5 13.9 (234) 13.8 (280) 13.4 (410) 13.6 (487) 13.2 (205) 13.4 (213) 13.5 (240) 13.1 (229) 12.9 (243) 13.3 (289)
Top 5 longest reads and their mean basecall quality score
1 9939 (10.0) 14165 (7.9) 11120 (10.3) 10367 (10.5) 11349 (8.9) 7202 (9.5) 13335 (9.7) 10872 (9.4) 8103 (10.2) 13921 (9.9)
2 9273 (10.0) 8814 (10.2) 10467 (10.7) 9189 (9.1) 10574 (8.4) 6908 (7.9) 12091 (10.1) 10683 (10.2) 7347 (8.2) 13369 (9.2)
3 9144 (10.4) 6993 (8.1) 9275 (10.0) 8767 (10.2) 10036 (9.9) 6810 (7.5) 12074 (9.5) 10575 (8.8) 7311 (9.9) 10260 (9.7)
4 8918 (10.4) 6678 (10.3) 8875 (8.9) 8737 (8.2) 9969 (10.7) 6689 (10.0) 10437 (10.2) 9590 (8.2) 7066 (9.5) 9801 (9.6)
5 8769 (10.1) 6632 (9.8) 8445 (9.5) 8731 (10.1) 9410 (8.0) 6582 (8.7) 10230 (9.7) 8999 (8.9) 6845 (9.1) 9218 (9.8)

Plots

Comparing number of reads

Comparing throughput in bases

Comparing read length N50

Comparing read length

Comparing log-transformed read length

Comparing average base call quality score

Histogram of read lengths

Normalized histogram of read lengths

Weighted histogram of read lengths

Histogram of log transformed read lengths

Normalized histogram of log transformed read lengths

Weighted histogram of log transformed read lengths